Hierarchical alignments with the V. vinifera genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Fabaceae genomes. We used P. vulgaris as a reference, and by comparing homologous gene locus maps and Ks values between P. vulgaris and other Fabaceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We created two hierarchical lists of homologous genes using P. vulgaris as a reference.
  The relevant gene ids can be obtained from the Fabaceae blast and match under the Tools module. This link is Fabaceae blast and match.
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Select Download Tree Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi16g1129 . . . . . . . . . . . Ahy16g3578 . Aip06g03839 . . . Amo16g3895 . . . . . . . . Bva12g01966 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pumo9g00984 . Pvu1g0490 . . . . . . . . . . . . . . . . . Vian7g00265 . Vifa3g04128 . Vimu1g02648 . Viun8g01211 . . . .
Vvi16g1130 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1131 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu1g0495 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1132 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1133 . . . . Adu08g00442 . . . . . . . . . Alju08g0261 . . . . . Arst8g00552 . . . . . . . . . . . Dere04g1198 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01358 . Lasa5g02996 . . . . . . . . . . . . . Mepo3g06528 . Mesa9g04058 . . . . . Phac9g01426 . Phco7g01409 . . . . . Pste2g03421 . . . . . Pumo10g01392 . Pvu9g0557 . Rops10g02097 . Seca4g02554 . Spst9g01453 . . . Sto9g2767 . . . Trre5g03827 . . . Vian4g01388 . Vifa2g02731 . Vimu10g02467 . Viun9g02206 . Vivi3g02869 . . .
Vvi16g1134 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1135 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1136 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1137 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1138 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g1129 Chr16 19743671 19744847 -
Ahy Ahy16g3578 Chr16 153401607 153406092 -
Aip Aip06g03839 Chr06 136097370 136098218 -
Amo Amo16g3895 Chr16 150738634 150743144 -
Bva Bva12g01966 Chr12 15594010 15599451 +
Pumo Pumo9g00984 Chr9 24150757 24156669 +
Pvu Pvu1g0490 Chr1 5242170 5243423 -
Vian Vian7g00265 Chr7 7869005 7873223 -
Vifa Vifa3g04128 Chr3 1218416705 1218433168 +
Vimu Vimu1g02648 Chr1 38278164 38279342 +
Viun Viun8g01211 Chr8 17100962 17111870 +
Vvi Vvi16g1130 Chr16 19745443 19747737 +
Vvi Vvi16g1131 Chr16 19772884 19773255 -
Pvu Pvu1g0495 Chr1 5298347 5298987 -
Vvi Vvi16g1132 Chr16 19773403 19776530 -
Vvi Vvi16g1133 Chr16 19778217 19780647 +
Adu Adu08g00442 Chr08 7961781 7964203 +
Alju Alju08g0261 Chr08 1903591 1905760 -
Arst Arst8g00552 Chr8 7933858 7936914 +
Dere Dere04g1198 Chr04 13385229 13388308 +
Lapu Lapu9g01358 Chr9 27756742 27773927 +
Lasa Lasa5g02996 Chr5 525362380 525363825 -
Mepo Mepo3g06528 Chr3 79274671 79277032 -
Mesa Mesa9g04058 Chr9 73187150 73189319 -
Phac Phac9g01426 Chr9 11629685 11633967 +
Phco Phco7g01409 Chr7 12926372 12928448 -
Pste Pste2g03421 Chr2 34513193 34514862 -
Pumo Pumo10g01392 Chr10 18503365 18506755 -
Pvu Pvu9g0557 Chr9 10072456 10073921 +
Rops Rops10g02097 Chr10 38086700 38090799 -
Seca Seca4g02554 Chr4 43753506 43756152 -
Spst Spst9g01453 Chr9 14574088 14577098 -
Sto Sto9g2767 Chr9 29426301 29436355 -
Trre Trre5g03827 Chr5 38843380 38846080 -
Vian Vian4g01388 Chr4 28191928 28198035 +
Vifa Vifa2g02731 Chr2 752378476 752380013 -
Vimu Vimu10g02467 Chr10 35726356 35726828 -
Viun Viun9g02206 Chr9 31531411 31534706 +
Vivi Vivi3g02869 Chr3 47766518 47769027 -
Vvi Vvi16g1134 Chr16 19780720 19781520 +
Vvi Vvi16g1135 Chr16 19785467 19785820 -
Vvi Vvi16g1136 Chr16 19786773 19787125 -
Vvi Vvi16g1137 Chr16 19798195 19798547 -
Vvi Vvi16g1138 Chr16 19801416 19808483 +